pirs →
2.0.2+dfsg-9 →
armhf → 2020-12-11 06:35:59
sbuild (Debian sbuild) 0.71.0 (24 Aug 2016) on bm-wb-04
+==============================================================================+
| pirs 2.0.2+dfsg-9 (armhf) Fri, 11 Dec 2020 06:25:37 +0000 |
+==============================================================================+
Package: pirs
Version: 2.0.2+dfsg-9
Source Version: 2.0.2+dfsg-9
Distribution: bullseye-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/bullseye-staging-armhf-sbuild-e983a5e1-2665-4e9b-9079-406989f71811' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private bullseye-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private bullseye-staging/main Sources [12.0 MB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf Packages [13.0 MB]
Fetched 24.9 MB in 26s (972 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'pirs' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/pirs.git
Please use:
git clone https://salsa.debian.org/med-team/pirs.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 6038 kB of source archives.
Get:1 http://172.17.0.1/private bullseye-staging/main pirs 2.0.2+dfsg-9 (dsc) [2119 B]
Get:2 http://172.17.0.1/private bullseye-staging/main pirs 2.0.2+dfsg-9 (tar) [6029 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main pirs 2.0.2+dfsg-9 (diff) [7040 B]
Fetched 6038 kB in 1s (5398 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/pirs-yL8yjC/pirs-2.0.2+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/pirs-yL8yjC' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-vMswWv/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-vMswWv/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-vMswWv/gpg/trustdb.gpg: trustdb created
gpg: key 35506D9A48F77B2E: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 35506D9A48F77B2E: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 35506D9A48F77B2E: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ Packages [433 B]
Fetched 2109 B in 1s (2696 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
bsdextrautils krb5-locales libnss-nis libnss-nisplus libpam-cap netbase
sensible-utils
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 0 not upgraded.
Need to get 852 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [852 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 852 B in 0s (22.3 kB/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 12776 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper-compat (= 13), libboost-dev, zlib1g-dev, libgzstream-dev
Filtered Build-Depends: debhelper-compat (= 13), libboost-dev, zlib1g-dev, libgzstream-dev
dpkg-deb: building package 'sbuild-build-depends-pirs-dummy' in '/<<BUILDDIR>>/resolver-vMswWv/apt_archive/sbuild-build-depends-pirs-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-pirs-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ Sources [511 B]
Get:5 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ Packages [593 B]
Fetched 2437 B in 1s (3230 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install pirs build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
krb5-locales libnss-nis libnss-nisplus libpam-cap netbase
Use 'apt autoremove' to remove them.
The following additional packages will be installed:
autoconf automake autopoint autotools-dev debhelper dh-autoreconf
dh-strip-nondeterminism dwz file gettext gettext-base groff-base
intltool-debian libarchive-zip-perl libboost-dev libboost1.71-dev libcroco3
libdebhelper-perl libelf1 libfile-stripnondeterminism-perl libglib2.0-0
libgzstream-dev libgzstream0 libicu67 libmagic-mgc libmagic1 libpipeline1
libsigsegv2 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db
po-debconf zlib1g-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc
libasprintf-dev libgettextpo-dev groff libboost-doc libboost1.71-doc
libboost-atomic1.71-dev libboost-chrono1.71-dev libboost-container1.71-dev
libboost-context1.71-dev libboost-contract1.71-dev
libboost-coroutine1.71-dev libboost-date-time1.71-dev
libboost-exception1.71-dev libboost-fiber1.71-dev
libboost-filesystem1.71-dev libboost-graph1.71-dev
libboost-graph-parallel1.71-dev libboost-iostreams1.71-dev
libboost-locale1.71-dev libboost-log1.71-dev libboost-math1.71-dev
libboost-mpi1.71-dev libboost-mpi-python1.71-dev libboost-numpy1.71-dev
libboost-program-options1.71-dev libboost-python1.71-dev
libboost-random1.71-dev libboost-regex1.71-dev
libboost-serialization1.71-dev libboost-stacktrace1.71-dev
libboost-system1.71-dev libboost-test1.71-dev libboost-thread1.71-dev
libboost-timer1.71-dev libboost-type-erasure1.71-dev libboost-wave1.71-dev
libboost1.71-tools-dev libmpfrc++-dev libntl-dev libtool-doc gfortran
| fortran95-compiler gcj-jdk m4-doc apparmor less www-browser
libmail-box-perl
Recommended packages:
curl | wget | lynx libarchive-cpio-perl libglib2.0-data shared-mime-info
xdg-user-dirs libltdl-dev libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev debhelper dh-autoreconf
dh-strip-nondeterminism dwz file gettext gettext-base groff-base
intltool-debian libarchive-zip-perl libboost-dev libboost1.71-dev libcroco3
libdebhelper-perl libelf1 libfile-stripnondeterminism-perl libglib2.0-0
libgzstream-dev libgzstream0 libicu67 libmagic-mgc libmagic1 libpipeline1
libsigsegv2 libsub-override-perl libtool libuchardet0 libxml2 m4 man-db
po-debconf sbuild-build-depends-pirs-dummy zlib1g-dev
0 upgraded, 37 newly installed, 0 to remove and 0 not upgraded.
Need to get 27.7 MB of archives.
After this operation, 207 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-vMswWv/apt_archive ./ sbuild-build-depends-pirs-dummy 0.invalid.0 [884 B]
Get:2 http://172.17.0.1/private bullseye-staging/main armhf libuchardet0 armhf 0.0.7-1 [65.0 kB]
Get:3 http://172.17.0.1/private bullseye-staging/main armhf groff-base armhf 1.22.4-5 [783 kB]
Get:4 http://172.17.0.1/private bullseye-staging/main armhf libpipeline1 armhf 1.5.3-1 [29.9 kB]
Get:5 http://172.17.0.1/private bullseye-staging/main armhf man-db armhf 2.9.3-2 [1269 kB]
Get:6 http://172.17.0.1/private bullseye-staging/main armhf libmagic-mgc armhf 1:5.38-5 [262 kB]
Get:7 http://172.17.0.1/private bullseye-staging/main armhf libmagic1 armhf 1:5.38-5 [113 kB]
Get:8 http://172.17.0.1/private bullseye-staging/main armhf file armhf 1:5.38-5 [67.0 kB]
Get:9 http://172.17.0.1/private bullseye-staging/main armhf gettext-base armhf 0.19.8.1-10 [117 kB]
Get:10 http://172.17.0.1/private bullseye-staging/main armhf libsigsegv2 armhf 2.12-2 [32.3 kB]
Get:11 http://172.17.0.1/private bullseye-staging/main armhf m4 armhf 1.4.18-4 [185 kB]
Get:12 http://172.17.0.1/private bullseye-staging/main armhf autoconf all 2.69-11.1 [341 kB]
Get:13 http://172.17.0.1/private bullseye-staging/main armhf autotools-dev all 20180224.1 [77.0 kB]
Get:14 http://172.17.0.1/private bullseye-staging/main armhf automake all 1:1.16.2-4 [801 kB]
Get:15 http://172.17.0.1/private bullseye-staging/main armhf autopoint all 0.19.8.1-10 [435 kB]
Get:16 http://172.17.0.1/private bullseye-staging/main armhf libtool all 2.4.6-14 [513 kB]
Get:17 http://172.17.0.1/private bullseye-staging/main armhf dh-autoreconf all 19 [16.9 kB]
Get:18 http://172.17.0.1/private bullseye-staging/main armhf libdebhelper-perl all 13.2.1 [188 kB]
Get:19 http://172.17.0.1/private bullseye-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:20 http://172.17.0.1/private bullseye-staging/main armhf libsub-override-perl all 0.09-2 [10.2 kB]
Get:21 http://172.17.0.1/private bullseye-staging/main armhf libfile-stripnondeterminism-perl all 1.9.0-1 [25.5 kB]
Get:22 http://172.17.0.1/private bullseye-staging/main armhf dh-strip-nondeterminism all 1.9.0-1 [15.2 kB]
Get:23 http://172.17.0.1/private bullseye-staging/main armhf libelf1 armhf 0.182-1 [162 kB]
Get:24 http://172.17.0.1/private bullseye-staging/main armhf dwz armhf 0.13-5 [142 kB]
Get:25 http://172.17.0.1/private bullseye-staging/main armhf libglib2.0-0 armhf 2.66.3-2 [1178 kB]
Get:26 http://172.17.0.1/private bullseye-staging/main armhf libicu67 armhf 67.1-4 [8289 kB]
Get:27 http://172.17.0.1/private bullseye-staging/main armhf libxml2 armhf 2.9.10+dfsg-6.3 [580 kB]
Get:28 http://172.17.0.1/private bullseye-staging/main armhf libcroco3 armhf 0.6.13-1 [133 kB]
Get:29 http://172.17.0.1/private bullseye-staging/main armhf gettext armhf 0.19.8.1-10 [1219 kB]
Get:30 http://172.17.0.1/private bullseye-staging/main armhf intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:31 http://172.17.0.1/private bullseye-staging/main armhf po-debconf all 1.0.21 [248 kB]
Get:32 http://172.17.0.1/private bullseye-staging/main armhf debhelper all 13.2.1 [1007 kB]
Get:33 http://172.17.0.1/private bullseye-staging/main armhf libboost1.71-dev armhf 1.71.0-7+b1 [9098 kB]
Get:34 http://172.17.0.1/private bullseye-staging/main armhf libboost-dev armhf 1.71.0.3+b8 [4624 B]
Get:35 http://172.17.0.1/private bullseye-staging/main armhf libgzstream0 armhf 1.5+dfsg-5 [6268 B]
Get:36 http://172.17.0.1/private bullseye-staging/main armhf libgzstream-dev armhf 1.5+dfsg-5 [6728 B]
Get:37 http://172.17.0.1/private bullseye-staging/main armhf zlib1g-dev armhf 1:1.2.11.dfsg-2 [184 kB]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 27.7 MB in 3s (8803 kB/s)
Selecting previously unselected package libuchardet0:armhf.
(Reading database ... 12776 files and directories currently installed.)
Preparing to unpack .../00-libuchardet0_0.0.7-1_armhf.deb ...
Unpacking libuchardet0:armhf (0.0.7-1) ...
Selecting previously unselected package groff-base.
Preparing to unpack .../01-groff-base_1.22.4-5_armhf.deb ...
Unpacking groff-base (1.22.4-5) ...
Selecting previously unselected package libpipeline1:armhf.
Preparing to unpack .../02-libpipeline1_1.5.3-1_armhf.deb ...
Unpacking libpipeline1:armhf (1.5.3-1) ...
Selecting previously unselected package man-db.
Preparing to unpack .../03-man-db_2.9.3-2_armhf.deb ...
Unpacking man-db (2.9.3-2) ...
Selecting previously unselected package libmagic-mgc.
Preparing to unpack .../04-libmagic-mgc_1%3a5.38-5_armhf.deb ...
Unpacking libmagic-mgc (1:5.38-5) ...
Selecting previously unselected package libmagic1:armhf.
Preparing to unpack .../05-libmagic1_1%3a5.38-5_armhf.deb ...
Unpacking libmagic1:armhf (1:5.38-5) ...
Selecting previously unselected package file.
Preparing to unpack .../06-file_1%3a5.38-5_armhf.deb ...
Unpacking file (1:5.38-5) ...
Selecting previously unselected package gettext-base.
Preparing to unpack .../07-gettext-base_0.19.8.1-10_armhf.deb ...
Unpacking gettext-base (0.19.8.1-10) ...
Selecting previously unselected package libsigsegv2:armhf.
Preparing to unpack .../08-libsigsegv2_2.12-2_armhf.deb ...
Unpacking libsigsegv2:armhf (2.12-2) ...
Selecting previously unselected package m4.
Preparing to unpack .../09-m4_1.4.18-4_armhf.deb ...
Unpacking m4 (1.4.18-4) ...
Selecting previously unselected package autoconf.
Preparing to unpack .../10-autoconf_2.69-11.1_all.deb ...
Unpacking autoconf (2.69-11.1) ...
Selecting previously unselected package autotools-dev.
Preparing to unpack .../11-autotools-dev_20180224.1_all.deb ...
Unpacking autotools-dev (20180224.1) ...
Selecting previously unselected package automake.
Preparing to unpack .../12-automake_1%3a1.16.2-4_all.deb ...
Unpacking automake (1:1.16.2-4) ...
Selecting previously unselected package autopoint.
Preparing to unpack .../13-autopoint_0.19.8.1-10_all.deb ...
Unpacking autopoint (0.19.8.1-10) ...
Selecting previously unselected package libtool.
Preparing to unpack .../14-libtool_2.4.6-14_all.deb ...
Unpacking libtool (2.4.6-14) ...
Selecting previously unselected package dh-autoreconf.
Preparing to unpack .../15-dh-autoreconf_19_all.deb ...
Unpacking dh-autoreconf (19) ...
Selecting previously unselected package libdebhelper-perl.
Preparing to unpack .../16-libdebhelper-perl_13.2.1_all.deb ...
Unpacking libdebhelper-perl (13.2.1) ...
Selecting previously unselected package libarchive-zip-perl.
Preparing to unpack .../17-libarchive-zip-perl_1.68-1_all.deb ...
Unpacking libarchive-zip-perl (1.68-1) ...
Selecting previously unselected package libsub-override-perl.
Preparing to unpack .../18-libsub-override-perl_0.09-2_all.deb ...
Unpacking libsub-override-perl (0.09-2) ...
Selecting previously unselected package libfile-stripnondeterminism-perl.
Preparing to unpack .../19-libfile-stripnondeterminism-perl_1.9.0-1_all.deb ...
Unpacking libfile-stripnondeterminism-perl (1.9.0-1) ...
Selecting previously unselected package dh-strip-nondeterminism.
Preparing to unpack .../20-dh-strip-nondeterminism_1.9.0-1_all.deb ...
Unpacking dh-strip-nondeterminism (1.9.0-1) ...
Selecting previously unselected package libelf1:armhf.
Preparing to unpack .../21-libelf1_0.182-1_armhf.deb ...
Unpacking libelf1:armhf (0.182-1) ...
Selecting previously unselected package dwz.
Preparing to unpack .../22-dwz_0.13-5_armhf.deb ...
Unpacking dwz (0.13-5) ...
Selecting previously unselected package libglib2.0-0:armhf.
Preparing to unpack .../23-libglib2.0-0_2.66.3-2_armhf.deb ...
Unpacking libglib2.0-0:armhf (2.66.3-2) ...
Selecting previously unselected package libicu67:armhf.
Preparing to unpack .../24-libicu67_67.1-4_armhf.deb ...
Unpacking libicu67:armhf (67.1-4) ...
Selecting previously unselected package libxml2:armhf.
Preparing to unpack .../25-libxml2_2.9.10+dfsg-6.3_armhf.deb ...
Unpacking libxml2:armhf (2.9.10+dfsg-6.3) ...
Selecting previously unselected package libcroco3:armhf.
Preparing to unpack .../26-libcroco3_0.6.13-1_armhf.deb ...
Unpacking libcroco3:armhf (0.6.13-1) ...
Selecting previously unselected package gettext.
Preparing to unpack .../27-gettext_0.19.8.1-10_armhf.deb ...
Unpacking gettext (0.19.8.1-10) ...
Selecting previously unselected package intltool-debian.
Preparing to unpack .../28-intltool-debian_0.35.0+20060710.5_all.deb ...
Unpacking intltool-debian (0.35.0+20060710.5) ...
Selecting previously unselected package po-debconf.
Preparing to unpack .../29-po-debconf_1.0.21_all.deb ...
Unpacking po-debconf (1.0.21) ...
Selecting previously unselected package debhelper.
Preparing to unpack .../30-debhelper_13.2.1_all.deb ...
Unpacking debhelper (13.2.1) ...
Selecting previously unselected package libboost1.71-dev:armhf.
Preparing to unpack .../31-libboost1.71-dev_1.71.0-7+b1_armhf.deb ...
Unpacking libboost1.71-dev:armhf (1.71.0-7+b1) ...
Selecting previously unselected package libboost-dev:armhf.
Preparing to unpack .../32-libboost-dev_1.71.0.3+b8_armhf.deb ...
Unpacking libboost-dev:armhf (1.71.0.3+b8) ...
Selecting previously unselected package libgzstream0.
Preparing to unpack .../33-libgzstream0_1.5+dfsg-5_armhf.deb ...
Unpacking libgzstream0 (1.5+dfsg-5) ...
Selecting previously unselected package libgzstream-dev.
Preparing to unpack .../34-libgzstream-dev_1.5+dfsg-5_armhf.deb ...
Unpacking libgzstream-dev (1.5+dfsg-5) ...
Selecting previously unselected package zlib1g-dev:armhf.
Preparing to unpack .../35-zlib1g-dev_1%3a1.2.11.dfsg-2_armhf.deb ...
Unpacking zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Selecting previously unselected package sbuild-build-depends-pirs-dummy.
Preparing to unpack .../36-sbuild-build-depends-pirs-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-pirs-dummy (0.invalid.0) ...
Setting up libpipeline1:armhf (1.5.3-1) ...
Setting up libicu67:armhf (67.1-4) ...
Setting up libmagic-mgc (1:5.38-5) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libglib2.0-0:armhf (2.66.3-2) ...
No schema files found: doing nothing.
Setting up libdebhelper-perl (13.2.1) ...
Setting up libboost1.71-dev:armhf (1.71.0-7+b1) ...
Setting up libmagic1:armhf (1:5.38-5) ...
Setting up gettext-base (0.19.8.1-10) ...
Setting up file (1:5.38-5) ...
Setting up autotools-dev (20180224.1) ...
Setting up libsigsegv2:armhf (2.12-2) ...
Setting up autopoint (0.19.8.1-10) ...
Setting up libgzstream0 (1.5+dfsg-5) ...
Setting up zlib1g-dev:armhf (1:1.2.11.dfsg-2) ...
Setting up libuchardet0:armhf (0.0.7-1) ...
Setting up libsub-override-perl (0.09-2) ...
Setting up libboost-dev:armhf (1.71.0.3+b8) ...
Setting up libelf1:armhf (0.182-1) ...
Setting up libxml2:armhf (2.9.10+dfsg-6.3) ...
Setting up libfile-stripnondeterminism-perl (1.9.0-1) ...
Setting up libtool (2.4.6-14) ...
Setting up m4 (1.4.18-4) ...
Setting up libgzstream-dev (1.5+dfsg-5) ...
Setting up libcroco3:armhf (0.6.13-1) ...
Setting up autoconf (2.69-11.1) ...
Setting up dh-strip-nondeterminism (1.9.0-1) ...
Setting up dwz (0.13-5) ...
Setting up groff-base (1.22.4-5) ...
Setting up automake (1:1.16.2-4) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
Setting up gettext (0.19.8.1-10) ...
Setting up man-db (2.9.3-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up intltool-debian (0.35.0+20060710.5) ...
Setting up po-debconf (1.0.21) ...
Setting up dh-autoreconf (19) ...
Setting up debhelper (13.2.1) ...
Setting up sbuild-build-depends-pirs-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.31-5+rpi1) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.9.0-0.bpo.4-armmp armhf (armv7l)
Toolchain package versions: binutils_2.35.1-4+rpi1 dpkg-dev_1.20.5+rpi1 g++-10_10.2.0-19+rpi1 gcc-10_10.2.0-19+rpi1 libc6-dev_2.31-5+rpi1 libstdc++-10-dev_10.2.0-19+rpi1 libstdc++6_10.2.0-19+rpi1 linux-libc-dev_5.9.6-1+rpi1+b1
Package versions: adduser_3.118 apt_2.1.12 aptitude_0.8.13-2 aptitude-common_0.8.13-2 autoconf_2.69-11.1 automake_1:1.16.2-4 autopoint_0.19.8.1-10 autotools-dev_20180224.1 base-files_11+rpi1 base-passwd_3.5.48 bash_5.1~rc3-1 binutils_2.35.1-4+rpi1 binutils-arm-linux-gnueabihf_2.35.1-4+rpi1 binutils-common_2.35.1-4+rpi1 bsdextrautils_2.36.1-2 bsdutils_1:2.36.1-2 build-essential_12.8 bzip2_1.0.8-4 coreutils_8.32-4 cpp_4:10.2.0-1+rpi1 cpp-10_10.2.0-19+rpi1 dash_0.5.11+git20200708+dd9ef66-2 debconf_1.5.74 debhelper_13.2.1 debianutils_4.11.2 dh-autoreconf_19 dh-strip-nondeterminism_1.9.0-1 diffutils_1:3.7-3 dirmngr_2.2.20-1 dpkg_1.20.5+rpi1 dpkg-dev_1.20.5+rpi1 dwz_0.13-5 e2fsprogs_1.45.6-1 fakeroot_1.25.3-1.1 fdisk_2.36.1-2 file_1:5.38-5 findutils_4.7.0+git20201010-2 g++_4:10.2.0-1+rpi1 g++-10_10.2.0-19+rpi1 gcc_4:10.2.0-1+rpi1 gcc-10_10.2.0-19+rpi1 gcc-10-base_10.2.0-19+rpi1 gettext_0.19.8.1-10 gettext-base_0.19.8.1-10 gnupg_2.2.20-1 gnupg-l10n_2.2.20-1 gnupg-utils_2.2.20-1 gpg_2.2.20-1 gpg-agent_2.2.20-1 gpg-wks-client_2.2.20-1 gpg-wks-server_2.2.20-1 gpgconf_2.2.20-1 gpgsm_2.2.20-1 gpgv_2.2.20-1 grep_3.6-1 groff-base_1.22.4-5 gzip_1.10-2 hostname_3.23 init-system-helpers_1.59 intltool-debian_0.35.0+20060710.5 iputils-ping_3:20200821-2 krb5-locales_1.18.3-4 libacl1_2.2.53-8 libapt-pkg6.0_2.1.12 libarchive-zip-perl_1.68-1 libasan6_10.2.0-19+rpi1 libassuan0_2.5.3-7.1 libatomic1_10.2.0-19+rpi1 libattr1_1:2.4.48-5 libaudit-common_1:2.8.5-3.1 libaudit1_1:2.8.5-3.1+b1 libbinutils_2.35.1-4+rpi1 libblkid1_2.36.1-2 libboost-dev_1.71.0.3+b8 libboost-iostreams1.71.0_1.71.0-7+b1 libboost1.71-dev_1.71.0-7+b1 libbz2-1.0_1.0.8-4 libc-bin_2.31-5+rpi1 libc-dev-bin_2.31-5+rpi1 libc6_2.31-5+rpi1 libc6-dev_2.31-5+rpi1 libcap-ng0_0.7.9-2.2+b1 libcap2_1:2.44-1 libcap2-bin_1:2.44-1 libcc1-0_10.2.0-19+rpi1 libcom-err2_1.45.6-1 libcroco3_0.6.13-1 libcrypt-dev_1:4.4.17-1 libcrypt1_1:4.4.17-1 libctf-nobfd0_2.35.1-4+rpi1 libctf0_2.35.1-4+rpi1 libcwidget4_0.5.18-5 libdb5.3_5.3.28+dfsg1-0.6 libdebconfclient0_0.255 libdebhelper-perl_13.2.1 libdpkg-perl_1.20.5+rpi1 libelf1_0.182-1 libext2fs2_1.45.6-1 libfakeroot_1.25.3-1.1 libfdisk1_2.36.1-2 libffi7_3.3-5 libfile-stripnondeterminism-perl_1.9.0-1 libgcc-10-dev_10.2.0-19+rpi1 libgcc-s1_10.2.0-19+rpi1 libgcrypt20_1.8.7-2 libgdbm-compat4_1.18.1-5.1 libgdbm6_1.18.1-5.1 libglib2.0-0_2.66.3-2 libgmp10_2:6.2.1+dfsg-1 libgnutls30_3.6.15-4 libgomp1_10.2.0-19+rpi1 libgpg-error0_1.38-2 libgssapi-krb5-2_1.18.3-4 libgzstream-dev_1.5+dfsg-5 libgzstream0_1.5+dfsg-5 libhogweed6_3.6-2 libicu67_67.1-4 libidn2-0_2.3.0-4 libisl23_0.23-1 libk5crypto3_1.18.3-4 libkeyutils1_1.6.1-2 libkrb5-3_1.18.3-4 libkrb5support0_1.18.3-4 libksba8_1.5.0-2 libldap-2.4-2_2.4.56+dfsg-1+rpi1+b1 libldap-common_2.4.56+dfsg-1+rpi1 liblz4-1_1.9.2-2 liblzma5_5.2.4-1 libmagic-mgc_1:5.38-5 libmagic1_1:5.38-5 libmount1_2.36.1-2 libmpc3_1.2.0-1 libmpfr6_4.1.0-3 libncursesw6_6.2+20201114-1 libnettle8_3.6-2 libnpth0_1.6-3 libnsl-dev_1.3.0-2 libnsl2_1.3.0-2 libnss-nis_3.1-4 libnss-nisplus_1.3-4 libp11-kit0_0.23.21-2 libpam-cap_1:2.44-1 libpam-modules_1.3.1-5 libpam-modules-bin_1.3.1-5 libpam-runtime_1.3.1-5 libpam0g_1.3.1-5 libpcre2-8-0_10.35-2 libpcre3_2:8.39-13 libperl5.32_5.32.0-5 libpipeline1_1.5.3-1 libreadline8_8.1~rc3-1 libsasl2-2_2.1.27+dfsg-2 libsasl2-modules-db_2.1.27+dfsg-2 libseccomp2_2.5.0-3+rpi1 libselinux1_3.1-2+b1 libsemanage-common_3.1-1 libsemanage1_3.1-1+b1 libsepol1_3.1-1 libsigc++-2.0-0v5_2.10.4-2 libsigsegv2_2.12-2 libsmartcols1_2.36.1-2 libsqlite3-0_3.34.0-1 libss2_1.45.6-1 libssl1.1_1.1.1h-1 libstdc++-10-dev_10.2.0-19+rpi1 libstdc++6_10.2.0-19+rpi1 libsub-override-perl_0.09-2 libsystemd0_246.6-4+rpi1 libtasn1-6_4.16.0-2 libtinfo6_6.2+20201114-1 libtirpc-common_1.2.6-3 libtirpc-dev_1.2.6-3 libtirpc3_1.2.6-3 libtool_2.4.6-14 libubsan1_10.2.0-19+rpi1 libuchardet0_0.0.7-1 libudev1_246.6-4+rpi1 libunistring2_0.9.10-4 libuuid1_2.36.1-2 libxapian30_1.4.17-1 libxml2_2.9.10+dfsg-6.3 libzstd1_1.4.5+dfsg-4+rpi1 linux-libc-dev_5.9.6-1+rpi1+b1 login_1:4.8.1-1 logsave_1.45.6-1 lsb-base_11.1.0+rpi1 m4_1.4.18-4 make_4.3-4 man-db_2.9.3-2 mawk_1.3.4.20200120-2 mount_2.36.1-2 ncurses-base_6.2+20201114-1 ncurses-bin_6.2+20201114-1 netbase_6.2 passwd_1:4.8.1-1 patch_2.7.6-6 perl_5.32.0-5 perl-base_5.32.0-5 perl-modules-5.32_5.32.0-5 pinentry-curses_1.1.0-4 po-debconf_1.0.21 raspbian-archive-keyring_20120528.2 readline-common_8.1~rc3-1 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-pirs-dummy_0.invalid.0 sed_4.7-1 sensible-utils_0.0.12+nmu1 sysvinit-utils_2.96-5 tar_1.32+dfsg-1+rpi1 tzdata_2020d-1 util-linux_2.36.1-2 xz-utils_5.2.4-1 zlib1g_1:1.2.11.dfsg-2 zlib1g-dev_1:1.2.11.dfsg-2
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/tmp/dpkg-verify-sig.aSOEY3LX/trustedkeys.kbx': General error
gpgv: Signature made Sat Dec 5 11:14:30 2020 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./pirs_2.0.2+dfsg-9.dsc
dpkg-source: info: extracting pirs in /<<BUILDDIR>>/pirs-2.0.2+dfsg
dpkg-source: info: unpacking pirs_2.0.2+dfsg.orig.tar.xz
dpkg-source: info: unpacking pirs_2.0.2+dfsg-9.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying use_debian_packaged_libgzstream.patch
dpkg-source: info: applying Fix-spelling-of-sse2-option.patch
dpkg-source: info: applying do_not_seek_for_arial.ttf.patch
dpkg-source: info: applying Remove-mtune-compiler-flag.patch
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=bullseye-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=bullseye-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=bullseye-staging-armhf-sbuild-e983a5e1-2665-4e9b-9079-406989f71811
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=xterm
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package pirs
dpkg-buildpackage: info: source version 2.0.2+dfsg-9
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --sourcedirectory=src
debian/rules override_dh_auto_clean
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_auto_clean
cd src && ./srclean.sh >/dev/null 2>/dev/null || true
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_autoreconf_clean -O--sourcedirectory=src
dh_clean -O--sourcedirectory=src
debian/rules binary-arch
dh binary-arch --sourcedirectory=src
dh_update_autotools_config -a -O--sourcedirectory=src
debian/rules override_dh_autoreconf
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
cd src && \
mv INSTALL INSTALL.save && \
autoreconf --install && \
mv INSTALL.save INSTALL && \
cd /<<BUILDDIR>>/pirs-2.0.2+dfsg
configure.ac:9: installing './compile'
configure.ac:3: installing './install-sh'
configure.ac:3: installing './missing'
Makefile.am: installing './INSTALL'
pirs/Makefile.am:28: warning: source file 'SFMT-src-1.4/SFMT.c' is in a subdirectory,
pirs/Makefile.am:28: but option 'subdir-objects' is disabled
automake: warning: possible forward-incompatibility.
automake: At least a source file is in a subdirectory, but the 'subdir-objects'
automake: automake option hasn't been enabled. For now, the corresponding output
automake: object file(s) will be placed in the top-level directory. However,
automake: this behaviour will change in future Automake versions: they will
automake: unconditionally cause object files to be placed in the same subdirectory
automake: of the corresponding sources.
automake: You are advised to start using 'subdir-objects' option throughout your
automake: project, to avoid future incompatibilities.
pirs/Makefile.am: installing './depcomp'
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_auto_configure -- --enable-pirs-diploid --disable-sse2
cd src && ./configure --build=arm-linux-gnueabihf --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/arm-linux-gnueabihf --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking --enable-pirs-diploid --disable-sse2
checking for a BSD-compatible install... /usr/bin/install -c
checking whether build environment is sane... yes
checking for a thread-safe mkdir -p... /bin/mkdir -p
checking for gawk... no
checking for mawk... mawk
checking whether make sets $(MAKE)... yes
checking whether make supports nested variables... yes
checking for g++... g++
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether g++ accepts -g... yes
checking whether make supports the include directive... yes (GNU style)
checking dependency style of g++... none
checking for gcc... gcc
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking whether gcc understands -c and -o together... yes
checking dependency style of gcc... none
checking for gzopen in -lz... yes
checking Whether to include support for 'pirs diploid' command... yes
checking Whether to include support for 'pirs simulate' command... yes
checking Whether to include support for multiple threads... yes
checking for g++ option to support OpenMP... -fopenmp
checking Whether to include support for SSE2 instructions... no
checking that generated files are newer than configure... done
configure: creating ./config.status
config.status: creating Makefile
config.status: creating pirs/Makefile
config.status: creating config.h
config.status: executing depfiles commands
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
debian/rules override_dh_auto_build
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_auto_build
cd src && make -j4
make[2]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
(CDPATH="${ZSH_VERSION+.}:" && cd . && /bin/bash /<<BUILDDIR>>/pirs-2.0.2+dfsg/src/missing autoheader)
rm -f stamp-h1
touch config.h.in
cd . && /bin/bash ./config.status config.h
config.status: creating config.h
config.status: config.h is unchanged
make all-recursive
make[3]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
Making all in pirs
make[4]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src/pirs'
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o InputStream.o InputStream.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o OutputStream.o OutputStream.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o main.o main.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o util.o util.cpp
main.cpp:18:19: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
18 | "Compile Date: " __DATE__ " time: " __TIME__ "\n"
| ^~~~~~~~
main.cpp:18:38: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time]
18 | "Compile Date: " __DATE__ " time: " __TIME__ "\n"
| ^~~~~~~~
In file included from OutputStream.cpp:1:
OutputStream.h: In constructor 'OutputStream::OutputStream()':
OutputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
OutputStream.h: In constructor 'OutputStream::OutputStream(const char*, OutputType)':
OutputStream.h:58:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
58 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
In file included from InputStream.cpp:1:
InputStream.h: In constructor 'InputStream::InputStream()':
InputStream.h:50:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
50 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
InputStream.h: In constructor 'InputStream::InputStream(const char*)':
InputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
In file included from util.cpp:18:
InputStream.h: In constructor 'InputStream::InputStream()':
InputStream.h:50:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
50 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
InputStream.h: In constructor 'InputStream::InputStream(const char*)':
InputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
util.cpp: In function 'void* xmalloc(size_t)':
util.cpp:192:51: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
192 | fatal_error("Out of memory: tried to allocate %lu bytes", size);
| ~~^ ~~~~
| | |
| | size_t {aka unsigned int}
| long unsigned int
| %u
util.cpp: In function 'void* xrealloc(void*, size_t)':
util.cpp:200:53: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'size_t' {aka 'unsigned int'} [-Wformat=]
200 | fatal_error("Out of memory: tried to reallocate %lu bytes", size);
| ~~^ ~~~~
| | |
| | size_t {aka unsigned int}
| long unsigned int
| %u
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o mt19937-64.o mt19937-64.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pirs_diploid.o pirs_diploid.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o BaseCallingProfile.o BaseCallingProfile.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o GCBiasProfile.o GCBiasProfile.cpp
pirs_diploid.cpp:639:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
639 | info(" [%#"PRIx64", %#"PRIx64", %#"PRIx64"\n",
| ^
pirs_diploid.cpp:639:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
639 | info(" [%#"PRIx64", %#"PRIx64", %#"PRIx64"\n",
| ^
pirs_diploid.cpp:639:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
639 | info(" [%#"PRIx64", %#"PRIx64", %#"PRIx64"\n",
| ^
pirs_diploid.cpp:641:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
641 | info(" %#"PRIx64", %#"PRIx64", %#"PRIx64"\n",
| ^
pirs_diploid.cpp:641:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
641 | info(" %#"PRIx64", %#"PRIx64", %#"PRIx64"\n",
| ^
pirs_diploid.cpp:641:33: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
641 | info(" %#"PRIx64", %#"PRIx64", %#"PRIx64"\n",
| ^
pirs_diploid.cpp:643:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
643 | info(" %#"PRIx64"]\n", het_type_tab[6]);
| ^
In file included from SimulationParameters.h:6,
from BaseCallingProfile.h:7,
from BaseCallingProfile.cpp:5:
InputStream.h: In constructor 'InputStream::InputStream()':
InputStream.h:50:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
50 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
InputStream.h: In constructor 'InputStream::InputStream(const char*)':
InputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
In file included from SimulationParameters.h:7,
from BaseCallingProfile.h:7,
from BaseCallingProfile.cpp:5:
OutputStream.h: In constructor 'OutputStream::OutputStream()':
OutputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
OutputStream.h: In constructor 'OutputStream::OutputStream(const char*, OutputType)':
OutputStream.h:58:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
58 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
In file included from pirs_diploid.cpp:11:
InputStream.h: In constructor 'InputStream::InputStream()':
InputStream.h:50:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
50 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
InputStream.h: In constructor 'InputStream::InputStream(const char*)':
InputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
In file included from pirs_diploid.cpp:12:
OutputStream.h: In constructor 'OutputStream::OutputStream()':
OutputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
OutputStream.h: In constructor 'OutputStream::OutputStream(const char*, OutputType)':
OutputStream.h:58:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
58 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
In file included from SimulationParameters.h:6,
from GCBiasProfile.h:5,
from GCBiasProfile.cpp:5:
InputStream.h: In constructor 'InputStream::InputStream()':
InputStream.h:50:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
50 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
InputStream.h: In constructor 'InputStream::InputStream(const char*)':
InputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
In file included from SimulationParameters.h:7,
from GCBiasProfile.h:5,
from GCBiasProfile.cpp:5:
OutputStream.h: In constructor 'OutputStream::OutputStream()':
OutputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
OutputStream.h: In constructor 'OutputStream::OutputStream(const char*, OutputType)':
OutputStream.h:58:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
58 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
pirs_diploid.cpp: In function 'bool try_indel(const double*, const size_t*, const std::vector<char>&, size_t&, std::vector<char>&, bool, const char*, Counter&)':
pirs_diploid.cpp:435:32: warning: format '%zu' expects argument of type 'size_t', but argument 4 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=]
435 | indel_log_file.printf("%s\t%zu\t%zu\t%c\t%zu\t",
| ~~^
| |
| unsigned int
| %llu
436 | id, log_ref_seq_idx, log_diploid_seq_idx,
| ~~~~~~~~~~~~~~~
| |
| uint64_t {aka long long unsigned int}
pirs_diploid.cpp:435:37: warning: format '%zu' expects argument of type 'size_t', but argument 5 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=]
435 | indel_log_file.printf("%s\t%zu\t%zu\t%c\t%zu\t",
| ~~^
| |
| unsigned int
| %llu
436 | id, log_ref_seq_idx, log_diploid_seq_idx,
| ~~~~~~~~~~~~~~~~~~~
| |
| uint64_t {aka long long unsigned int}
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o IndelProfile.o IndelProfile.cpp
In file included from /usr/include/c++/10/vector:72,
from GCBiasProfile.cpp:3:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from GCBiasProfile.cpp:3:
/usr/include/c++/10/bits/stl_vector.h: In member function 'void std::vector<_Tp, _Alloc>::push_back(const value_type&) [with _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o MaskQvalsByEamss.o MaskQvalsByEamss.cpp
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o Profile.o Profile.cpp
In file included from SimulationParameters.h:6,
from IndelProfile.cpp:2:
InputStream.h: In constructor 'InputStream::InputStream()':
InputStream.h:50:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
50 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
InputStream.h: In constructor 'InputStream::InputStream(const char*)':
InputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
In file included from SimulationParameters.h:7,
from IndelProfile.cpp:2:
OutputStream.h: In constructor 'OutputStream::OutputStream()':
OutputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
OutputStream.h: In constructor 'OutputStream::OutputStream(const char*, OutputType)':
OutputStream.h:58:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
58 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
IndelProfile.cpp: In function 'void load_indel_info_line(char*, Profile&)':
IndelProfile.cpp:117:44: warning: format '%lu' expects argument of type 'long unsigned int*', but argument 3 has type 'uint64_t*' {aka 'long long unsigned int*'} [-Wformat=]
117 | } else if (sscanf(line, "Read_1_Count = %lu", &n) == 1)
| ~~^ ~~
| | |
| | uint64_t* {aka long long unsigned int*}
| long unsigned int*
| %llu
IndelProfile.cpp:119:42: warning: format '%lu' expects argument of type 'long unsigned int*', but argument 3 has type 'uint64_t*' {aka 'long long unsigned int*'} [-Wformat=]
119 | else if (sscanf(line, "Read_2_Count = %lu", &n) == 1)
| ~~^ ~~
| | |
| | uint64_t* {aka long long unsigned int*}
| long unsigned int*
| %llu
IndelProfile.cpp: In constructor 'IndelProfile::IndelProfile(const SimulationParameters&)':
IndelProfile.cpp:165:30: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=]
165 | info(" read_1_count = %lu\n", read_1_count);
| ~~^ ~~~~~~~~~~~~
| | |
| | uint64_t {aka long long unsigned int}
| long unsigned int
| %llu
IndelProfile.cpp:166:30: warning: format '%lu' expects argument of type 'long unsigned int', but argument 2 has type 'uint64_t' {aka 'long long unsigned int'} [-Wformat=]
166 | info(" read_2_count = %lu\n", read_2_count);
| ~~^ ~~~~~~~~~~~~
| | |
| | uint64_t {aka long long unsigned int}
| long unsigned int
| %llu
In file included from Profile.cpp:2:
InputStream.h: In constructor 'InputStream::InputStream()':
InputStream.h:50:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
50 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
InputStream.h: In constructor 'InputStream::InputStream(const char*)':
InputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
g++ -DHAVE_CONFIG_H -I. -I.. -DPKGDATADIR='"/usr/share/pirs"' -Wdate-time -D_FORTIFY_SOURCE=2 -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -c -o pirs_simulate.o pirs_simulate.cpp
pirs_simulate.cpp:168:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
168 | " "DEFAULT_BASE_CALLING_PROFILE"\n"
| ^
pirs_simulate.cpp:174:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
174 | " "DEFAULT_INDEL_PROFILE"\n"
| ^
pirs_simulate.cpp:180:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
180 | " "DEFAULT_GC_BIAS_PROFILE_100",\n"
| ^
pirs_simulate.cpp:181:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
181 | " "DEFAULT_GC_BIAS_PROFILE_150",\n"
| ^
pirs_simulate.cpp:182:1: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
182 | " "DEFAULT_GC_BIAS_PROFILE_200",\n"
| ^
pirs_simulate.cpp:672:18: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
672 | out_file.printf("%cread_%d_%"PRIu64"/%d\n",
| ^
pirs_simulate.cpp:700:23: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
700 | info_log_file.printf("read_%d_%"PRIu64"/%d\t%s\t%s\t%zu\t%c\t%d\t%d\t",
| ^
pirs_simulate.cpp:1235:10: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1235 | info("Simulated %"PRIu64" of %"PRIu64" read pairs\n",
| ^
pirs_simulate.cpp:1235:29: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1235 | info("Simulated %"PRIu64" of %"PRIu64" read pairs\n",
| ^
pirs_simulate.cpp:1540:21: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1540 | insert_log.printf("%d\t%"PRIu64"\n", it->first, it->second);
| ^
pirs_simulate.cpp:1557:2: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1557 | "# The total number of read pairs that were simulated was %"PRIu64".\n"
| ^
pirs_simulate.cpp:1574:20: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1574 | error_log.printf("%d\t%"PRIu64"\t%g\n",
| ^
pirs_simulate.cpp:1579:19: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1579 | error_log.printf("total\t%"PRIu64"\t%g\n",
| ^
pirs_simulate.cpp:1685:26: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1685 | log_parameter(info_log, "Random seed: %"PRIu64"\n",
| ^
pirs_simulate.cpp:1713:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1713 | info("Program: "PROGRAM "\n");
| ^
pirs_simulate.cpp:1714:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1714 | info("Version: "VERSION "\n");
| ^
pirs_simulate.cpp:1715:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1715 | info("Author: "AUTHOR "\n");
| ^
pirs_simulate.cpp:1716:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1716 | info("Contact: "CONTACT "\n");
| ^
pirs_simulate.cpp:1717:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1717 | info("Compile Date: "__DATE__ " time: " __TIME__ "\n");
| ^
pirs_simulate.cpp:1717:25: warning: macro "__DATE__" might prevent reproducible builds [-Wdate-time]
1717 | info("Compile Date: "__DATE__ " time: " __TIME__ "\n");
| ^~~~~~~~
pirs_simulate.cpp:1717:44: warning: macro "__TIME__" might prevent reproducible builds [-Wdate-time]
1717 | info("Compile Date: "__DATE__ " time: " __TIME__ "\n");
| ^~~~~~~~
pirs_simulate.cpp:1764:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1764 | info("Bases in reference sequences: %"PRIu64"\n",
| ^
pirs_simulate.cpp:1766:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1766 | info("Read pairs simulated: %"PRIu64"\n",
| ^
pirs_simulate.cpp:1768:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1768 | info("Bases in reads: %"PRIu64"\n",
| ^
pirs_simulate.cpp:1773:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1773 | info("Substitution error count: %"PRIu64"\n",
| ^
pirs_simulate.cpp:1777:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1777 | info("Insertion count: %"PRIu64"\n",
| ^
pirs_simulate.cpp:1779:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1779 | info("Deletion count: %"PRIu64"\n",
| ^
pirs_simulate.cpp:1795:7: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1795 | info("Bases masked by EAMSS algorithm: %"PRIu64"\n", counters.masked_bases);
| ^
pirs_simulate.cpp:1856:8: warning: invalid suffix on literal; C++11 requires a space between literal and string macro [-Wliteral-suffix]
1856 | info("Note: A random seed (%"PRIu64") was specified on the command line.\n",
| ^
In file included from SimulationParameters.h:6,
from BaseCallingProfile.h:7,
from pirs_simulate.cpp:14:
InputStream.h: In constructor 'InputStream::InputStream()':
InputStream.h:50:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
50 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
InputStream.h: In constructor 'InputStream::InputStream(const char*)':
InputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class InputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
InputStream.h:25:7: note: 'class InputStream' declared here
25 | class InputStream {
| ^~~~~~~~~~~
In file included from SimulationParameters.h:7,
from BaseCallingProfile.h:7,
from pirs_simulate.cpp:14:
OutputStream.h: In constructor 'OutputStream::OutputStream()':
OutputStream.h:54:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
54 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
OutputStream.h: In constructor 'OutputStream::OutputStream(const char*, OutputType)':
OutputStream.h:58:32: warning: 'void* memset(void*, int, size_t)' clearing an object of non-trivial type 'class OutputStream'; use assignment or value-initialization instead [-Wclass-memaccess]
58 | memset(this, 0, sizeof(*this));
| ^
OutputStream.h:33:7: note: 'class OutputStream' declared here
33 | class OutputStream {
| ^~~~~~~~~~~~
g++ -Wall -Wextra -fopenmp -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pirs-2.0.2+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -o pirs InputStream.o OutputStream.o main.o util.o mt19937-64.o pirs_diploid.o BaseCallingProfile.o GCBiasProfile.o IndelProfile.o MaskQvalsByEamss.o Profile.o pirs_simulate.o -lz -lz
make[4]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src/pirs'
make[4]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
make[4]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
make[3]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
make[2]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
dh_auto_build --sourcedirectory=src/stator/gcContCvgBias -- CC='$(CXX)'
cd src/stator/gcContCvgBias && make -j4 "INSTALL=install --strip-program=true" CC=\$\(CXX\)
make[2]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src/stator/gcContCvgBias'
g++ -c -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal self_util.cpp self_util.h
g++ -c -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal main.cpp
g++ -c -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal stat_soap_coverage.h stat_soap_coverage.cpp
self_util.cpp: In function 'char toUpper(const char&)':
self_util.cpp:182:1: warning: control reaches end of non-void function [-Wreturn-type]
182 | }
| ^
self_util.cpp: In function 'char toLower(const char&)':
self_util.cpp:190:1: warning: control reaches end of non-void function [-Wreturn-type]
190 | }
| ^
In file included from /usr/include/boost/config/header_deprecated.hpp:18,
from /usr/include/boost/progress.hpp:22,
from stat_soap_coverage.cpp:8:
/usr/include/boost/progress.hpp:23:1: note: '#pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.'
23 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
| ^~~~~~~~~~~~~~~~~~~~~~~
/usr/include/boost/timer.hpp:21:1: note: '#pragma message: This header is deprecated. Use the facilities in <boost/timer/timer.hpp> instead.'
21 | BOOST_HEADER_DEPRECATED( "the facilities in <boost/timer/timer.hpp>" )
| ^~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/bits/stl_algo.h:61,
from /usr/include/c++/10/algorithm:62,
from stat_soap_coverage.cpp:5:
/usr/include/c++/10/bits/stl_heap.h: In function 'void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Distance = int; _Tp = double; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/10/bits/stl_heap.h:223:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
223 | __adjust_heap(_RandomAccessIterator __first, _Distance __holeIndex,
| ^~~~~~~~~~~~~
In file included from /usr/include/c++/10/algorithm:62,
from stat_soap_coverage.cpp:5:
/usr/include/c++/10/bits/stl_algo.h: In function 'void std::__insertion_sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1839 | __insertion_sort(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algo.h:1839:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algo.h: In function 'void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator = __gnu_cxx::__normal_iterator<double*, std::vector<double> >; _Size = int; _Compare = __gnu_cxx::__ops::_Iter_less_iter]':
/usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1945 | __introsort_loop(_RandomAccessIterator __first,
| ^~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1945:5: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
/usr/include/c++/10/bits/stl_algo.h:1959:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1959 | std::__introsort_loop(__cut, __last, __depth_limit, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {const double&}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
426 | vector<_Tp, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::_M_realloc_insert(std::vector<_Tp, _Alloc>::iterator, _Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:426:7: note: parameter passing for argument of type 'std::vector<double>::iterator' changed in GCC 7.1
/usr/include/c++/10/bits/vector.tcc: In member function 'void std::vector<_Tp, _Alloc>::emplace_back(_Args&& ...) [with _Args = {double}; _Tp = double; _Alloc = std::allocator<double>]':
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/map:60,
from stat_soap_coverage.cpp:2:
/usr/include/c++/10/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >&>, std::tuple<>}; _Key = std::__cxx11::basic_string<char>; _Val = std::pair<const std::__cxx11::basic_string<char>, long long unsigned int>; _KeyOfValue = std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> >; _Compare = std::less<std::__cxx11::basic_string<char> >; _Alloc = std::allocator<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> >]':
/usr/include/c++/10/bits/stl_tree.h:2458:7: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, long long unsigned int>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_tree.h: In member function 'std::pair<std::_Rb_tree_node_base*, std::_Rb_tree_node_base*> std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_get_insert_hint_unique_pos(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, const key_type&) [with _Key = double; _Val = std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >; _KeyOfValue = std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >; _Compare = std::less<double>; _Alloc = std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >]':
/usr/include/c++/10/bits/stl_tree.h:2193:5: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >, std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >, std::less<double>, std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > > >::const_iterator' changed in GCC 7.1
2193 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const double&>, std::tuple<>}; _Key = double; _Val = std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >; _KeyOfValue = std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >; _Compare = std::less<double>; _Alloc = std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >]':
/usr/include/c++/10/bits/stl_tree.h:2458:7: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >, std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >, std::less<double>, std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > > >::const_iterator' changed in GCC 7.1
2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/stl_vector.h: In member function 'void stat_soap_coverage::statDepth()':
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/10/algorithm:62,
from stat_soap_coverage.cpp:5:
/usr/include/c++/10/bits/stl_algo.h:1974:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1974 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1975 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1976 | __comp);
| ~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1886:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1886 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1891:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1891 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/map:61,
from stat_soap_coverage.cpp:2:
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >, std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >, std::less<double>, std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, long long unsigned int>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >, std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >, std::less<double>, std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, long long unsigned int>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/map:60,
from stat_soap_coverage.cpp:2:
/usr/include/c++/10/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<double&&>, std::tuple<>}; _Key = double; _Val = std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >; _KeyOfValue = std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >; _Compare = std::less<double>; _Alloc = std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >]':
/usr/include/c++/10/bits/stl_tree.h:2458:7: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >, std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >, std::less<double>, std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > > >::const_iterator' changed in GCC 7.1
2458 | _Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::
| ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_tree.h: In function 'std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::iterator std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::_M_emplace_hint_unique(std::_Rb_tree<_Key, _Val, _KeyOfValue, _Compare, _Alloc>::const_iterator, _Args&& ...) [with _Args = {const std::piecewise_construct_t&, std::tuple<const double&>, std::tuple<>}; _Key = double; _Val = std::pair<const double, std::vector<double> >; _KeyOfValue = std::_Select1st<std::pair<const double, std::vector<double> > >; _Compare = std::less<double>; _Alloc = std::allocator<std::pair<const double, std::vector<double> > >]':
/usr/include/c++/10/bits/stl_tree.h:2458:7: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
In file included from /usr/include/c++/10/map:61,
from stat_soap_coverage.cpp:2:
/usr/include/c++/10/bits/stl_map.h: In member function 'std::map<_Key, _Tp, _Compare, _Alloc>::mapped_type& std::map<_Key, _Tp, _Compare, _Alloc>::operator[](const key_type&) [with _Key = double; _Tp = std::vector<double>; _Compare = std::less<double>; _Alloc = std::allocator<std::pair<const double, std::vector<double> > >]':
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h: In member function 'void stat_soap_coverage::StatGC()':
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, long long unsigned int>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, long long unsigned int>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:520:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >, std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >, std::less<double>, std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > > >::const_iterator' changed in GCC 7.1
520 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
521 | std::forward_as_tuple(std::move(__k)),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
522 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:520:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> >, std::_Select1st<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > >, std::less<double>, std::allocator<std::pair<const double, std::map<std::__cxx11::basic_string<char>, long long unsigned int> > > >::const_iterator' changed in GCC 7.1
520 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
521 | std::forward_as_tuple(std::move(__k)),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
522 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<std::__cxx11::basic_string<char>, std::pair<const std::__cxx11::basic_string<char>, long long unsigned int>, std::_Select1st<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> >, std::less<std::__cxx11::basic_string<char> >, std::allocator<std::pair<const std::__cxx11::basic_string<char>, long long unsigned int> > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc: In member function 'void stat_soap_coverage::StatCoverage()':
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/algorithm:62,
from stat_soap_coverage.cpp:5:
/usr/include/c++/10/bits/stl_algo.h: In member function 'void stat_soap_coverage::DealStat()':
/usr/include/c++/10/bits/stl_algo.h:1974:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1974 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1975 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1976 | __comp);
| ~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1886:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1886 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1891:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1891 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/map:61,
from stat_soap_coverage.cpp:2:
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/algorithm:62,
from stat_soap_coverage.cpp:5:
/usr/include/c++/10/bits/stl_algo.h:1886:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1886 | std::__insertion_sort(__first, __first + int(_S_threshold), __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_algo.h:1891:23: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1891 | std::__insertion_sort(__first, __last, __comp);
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:72,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/vector.tcc:121:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
121 | _M_realloc_insert(end(), std::forward<_Args>(__args)...);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/map:61,
from stat_soap_coverage.cpp:2:
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/vector:67,
from stat_soap_coverage.cpp:7:
/usr/include/c++/10/bits/stl_vector.h:1198:21: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1198 | _M_realloc_insert(end(), __x);
| ~~~~~~~~~~~~~~~~~^~~~~~~~~~~~
In file included from /usr/include/c++/10/map:61,
from stat_soap_coverage.cpp:2:
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
/usr/include/c++/10/bits/stl_map.h:501:37: note: parameter passing for argument of type 'std::_Rb_tree<double, std::pair<const double, std::vector<double> >, std::_Select1st<std::pair<const double, std::vector<double> > >, std::less<double>, std::allocator<std::pair<const double, std::vector<double> > > >::const_iterator' changed in GCC 7.1
501 | __i = _M_t._M_emplace_hint_unique(__i, std::piecewise_construct,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
502 | std::tuple<const key_type&>(__k),
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
503 | std::tuple<>());
| ~~~~~~~~~~~~~~~
In file included from /usr/include/c++/10/algorithm:62,
from stat_soap_coverage.cpp:5:
/usr/include/c++/10/bits/stl_algo.h:1974:25: note: parameter passing for argument of type '__gnu_cxx::__normal_iterator<double*, std::vector<double> >' changed in GCC 7.1
1974 | std::__introsort_loop(__first, __last,
| ~~~~~~~~~~~~~~~~~~~~~^~~~~~~~~~~~~~~~~
1975 | std::__lg(__last - __first) * 2,
| ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
1976 | __comp);
| ~~~~~~~
g++ -o gc_coverage_bias -O3 -pipe -Wdate-time -D_FORTIFY_SOURCE=2 -pedantic -Wfloat-equal self_util.o main.o stat_soap_coverage.o -Wl,-z,relro -Wl,-z,now -lgzstream -lz
make[2]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src/stator/gcContCvgBias'
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_auto_test -a -O--sourcedirectory=src
cd src && make -j4 check VERBOSE=1
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
Making check in pirs
make[2]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src/pirs'
make[2]: Nothing to be done for 'check'.
make[2]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src/pirs'
make[2]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
make[2]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg/src'
create-stamp debian/debhelper-build-stamp
dh_testroot -a -O--sourcedirectory=src
dh_prep -a -O--sourcedirectory=src
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_auto_install --sourcedirectory=src/stator/gcContCvgBias
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
debian/rules override_dh_install
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_install
mkdir -p debian/pirs/usr/lib/pirs
find src -name "*.pl" -exec cp -a \{\} debian/pirs/usr/lib/pirs \;
rm -f debian/pirs/usr/lib/pirs/autobam.pl
# Fix perl interpreter path
for pl in `grep -Rl '#![/usr]*/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \
sed -i '1s?^#![/usr]*/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \
done
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
debian/rules override_dh_installdocs-arch
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_installdocs -a
cp -a src/stator/readme.txt debian/pirs/usr/share/doc/pirs/strator_readme.txt
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
debian/rules override_dh_installchangelogs
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_installchangelogs NEWS
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_installsystemduser -a -O--sourcedirectory=src
dh_perl -a -O--sourcedirectory=src
debian/rules override_dh_link-arch
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_link -a
for pl in debian/pirs/usr/lib/pirs/*.pl ; do \
plname=`basename ${pl}` ; \
ln -s ../lib/pirs/${plname} debian/pirs/usr/bin/`basename ${plname} .pl` ; \
done
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_strip_nondeterminism -a -O--sourcedirectory=src
dh_compress -a -O--sourcedirectory=src
debian/rules override_dh_fixperms
make[1]: Entering directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_fixperms
find debian/*/usr/lib -name "*.pl" -exec chmod +x \{\} \;
make[1]: Leaving directory '/<<BUILDDIR>>/pirs-2.0.2+dfsg'
dh_missing -a -O--sourcedirectory=src
dh_dwz -a -a -O--sourcedirectory=src
dwz: debian/pirs/usr/bin/gc_coverage_bias: .debug_info section not present
dwz: Too few files for multifile optimization
dh_dwz: warning: No dwz multifile created, but not explicitly requested either so ignoring it.
dh_dwz: warning: Common issues include no debug information at all (missing -g) and
dh_dwz: warning: compressed debug information (#931891).
dh_strip -a -a -O--sourcedirectory=src
dh_makeshlibs -a -a -O--sourcedirectory=src
dh_shlibdeps -a -a -O--sourcedirectory=src
dpkg-shlibdeps: warning: debian/pirs/usr/bin/gc_coverage_bias contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: debian/pirs/usr/bin/pirs contains an unresolvable reference to symbol __aeabi_atexit@CXXABI_ARM_1.3.3: it's probably a plugin
dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/pirs/usr/bin/pirs was not linked against ld-linux-armhf.so.3 (it uses none of the library's symbols)
dh_installdeb -a -O--sourcedirectory=src
dh_gencontrol -a -O--sourcedirectory=src
dpkg-gencontrol: warning: package pirs: substitution variable ${perl:Depends} unused, but is defined
dpkg-gencontrol: warning: package pirs: substitution variable ${perl:Depends} unused, but is defined
dh_md5sums -a -O--sourcedirectory=src
dh_builddeb -a -O--sourcedirectory=src
dpkg-deb: building package 'pirs-dbgsym' in '../pirs-dbgsym_2.0.2+dfsg-9_armhf.deb'.
dpkg-deb: building package 'pirs' in '../pirs_2.0.2+dfsg-9_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../pirs_2.0.2+dfsg-9_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2020-12-11T06:35:43Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
pirs_2.0.2+dfsg-9_armhf.changes:
--------------------------------
Format: 1.8
Date: Sat, 05 Dec 2020 12:01:22 +0100
Source: pirs
Binary: pirs pirs-dbgsym
Architecture: armhf
Version: 2.0.2+dfsg-9
Distribution: bullseye-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
pirs - Profile based Illumina pair-end Reads Simulator
Changes:
pirs (2.0.2+dfsg-9) unstable; urgency=medium
.
* Standards-Version: 4.5.1 (routine-update)
* debhelper-compat 13 (routine-update)
* Add salsa-ci file (routine-update)
* Rules-Requires-Root: no (routine-update)
* Set upstream metadata fields: Bug-Database, Bug-Submit, Repository,
Repository-Browse.
* Replace use of deprecated $ADTTMP with $AUTOPKGTEST_TMP.
Checksums-Sha1:
11f5d28480c2d22e0a582de2ddd026031e921a66 285188 pirs-dbgsym_2.0.2+dfsg-9_armhf.deb
856f9675e9d784d2499fb5eaea3fc6a26a332aef 5097 pirs_2.0.2+dfsg-9_armhf.buildinfo
ab61f94695dd0dd474df3352293fe374c3df898c 99936 pirs_2.0.2+dfsg-9_armhf.deb
Checksums-Sha256:
f69b2af5cd355740b273ca3d0412da909d02fc76edd32c2f37ce4c201610d2d7 285188 pirs-dbgsym_2.0.2+dfsg-9_armhf.deb
e6f83cf89c82a288fa1fa5ca59315b8bf0544b3360c5deab5ad23b80fabb8400 5097 pirs_2.0.2+dfsg-9_armhf.buildinfo
fa78898a694d97f395d2d0c720d8829ca23dccee5c5c988ca6aeaa22dd2aeade 99936 pirs_2.0.2+dfsg-9_armhf.deb
Files:
7027d53e64ba36efc93215a8874eeaa5 285188 debug optional pirs-dbgsym_2.0.2+dfsg-9_armhf.deb
284da6af21caf6fce2f4aed1c220a3aa 5097 science optional pirs_2.0.2+dfsg-9_armhf.buildinfo
dc86f2b8ab9fa556dba5b60b42ccc6d2 99936 science optional pirs_2.0.2+dfsg-9_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
pirs-dbgsym_2.0.2+dfsg-9_armhf.deb
----------------------------------
new Debian package, version 2.0.
size 285188 bytes: control archive=596 bytes.
409 bytes, 12 lines control
212 bytes, 2 lines md5sums
Package: pirs-dbgsym
Source: pirs
Version: 2.0.2+dfsg-9
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 332
Depends: pirs (= 2.0.2+dfsg-9)
Section: debug
Priority: optional
Description: debug symbols for pirs
Build-Ids: ba37da07ee290d80716ce691a31e746eb369316e e667ff2bf619616ab855af6bd3806f862af9c057
drwxr-xr-x root/root 0 2020-12-05 11:01 ./
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/lib/debug/
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/lib/debug/.build-id/ba/
-rw-r--r-- root/root 28832 2020-12-05 11:01 ./usr/lib/debug/.build-id/ba/37da07ee290d80716ce691a31e746eb369316e.debug
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/lib/debug/.build-id/e6/
-rw-r--r-- root/root 298036 2020-12-05 11:01 ./usr/lib/debug/.build-id/e6/67ff2bf619616ab855af6bd3806f862af9c057.debug
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/share/doc/
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/share/doc/pirs-dbgsym -> pirs
pirs_2.0.2+dfsg-9_armhf.deb
---------------------------
new Debian package, version 2.0.
size 99936 bytes: control archive=1684 bytes.
1394 bytes, 27 lines control
1528 bytes, 23 lines md5sums
Package: pirs
Version: 2.0.2+dfsg-9
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 334
Depends: libc6 (>= 2.29), libgcc-s1 (>= 3.5), libgomp1 (>= 4.9), libgzstream0 (>= 1.5+dfsg), libstdc++6 (>= 5.2), zlib1g (>= 1:1.2.0.2), pirs-profiles, fonts-liberation, gnuplot
Section: science
Priority: optional
Homepage: https://github.com/galaxy001/pirs
Description: Profile based Illumina pair-end Reads Simulator
The program pIRS can be used for simulating Illumina PE reads, with a
series of characters generated by Illumina sequencing platform, such as
insert size distribution, sequencing error(substitution, insertion,
deletion), quality score and GC content-coverage bias.
.
The insert size follows a normal distribution, so users should set the
mean value and standard deviation. Usually the standard deviation is set
as 1/20 of the mean value. The normal distribution by Box-Muller method
is simulated.
.
The program simulates sequencing error, quality score and GC content-
coverage bias according to the empirical distribution profile. Some
default profiles counted from lots of real sequencing data are provided.
.
To simulate reads from diploid genome, users should simulate the diploid
genome sequence firstly by setting the ratio of heterozygosis SNP,
heterozygosis InDel and structure variation.
drwxr-xr-x root/root 0 2020-12-05 11:01 ./
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/bin/
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/alignment_stator -> ../lib/pirs/alignment_stator.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/baseCalling_Matrix_analyzer -> ../lib/pirs/baseCalling_Matrix_analyzer.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/baseCalling_Matrix_calculator -> ../lib/pirs/baseCalling_Matrix_calculator.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/baseCalling_Matrix_calculator.0 -> ../lib/pirs/baseCalling_Matrix_calculator.0.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/baseCalling_Matrix_merger -> ../lib/pirs/baseCalling_Matrix_merger.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/baseCalling_Matrix_merger.old -> ../lib/pirs/baseCalling_Matrix_merger.old.pl
-rwxr-xr-x root/root 91796 2020-12-05 11:01 ./usr/bin/gc_coverage_bias
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/gc_coverage_bias_plot -> ../lib/pirs/gc_coverage_bias_plot.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/gethist -> ../lib/pirs/gethist.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/ifollowQ -> ../lib/pirs/ifollowQ.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/ifollowQmerge -> ../lib/pirs/ifollowQmerge.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/ifollowQplot -> ../lib/pirs/ifollowQplot.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/ifqQ -> ../lib/pirs/ifqQ.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/indelstat_sam_bam -> ../lib/pirs/indelstat_sam_bam.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/itilestator -> ../lib/pirs/itilestator.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/loess -> ../lib/pirs/loess.pl
lrwxrwxrwx root/root 0 2020-12-05 11:01 ./usr/bin/pifollowQmerge -> ../lib/pirs/pifollowQmerge.pl
-rwxr-xr-x root/root 87600 2020-12-05 11:01 ./usr/bin/pirs
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/lib/
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/lib/pirs/
-rwxr-xr-x root/root 15714 2020-12-05 11:01 ./usr/lib/pirs/alignment_stator.pl
-rwxr-xr-x root/root 11244 2020-12-05 11:01 ./usr/lib/pirs/baseCalling_Matrix_analyzer.pl
-rwxr-xr-x root/root 20935 2020-12-05 11:01 ./usr/lib/pirs/baseCalling_Matrix_calculator.0.pl
-rwxr-xr-x root/root 19564 2020-12-05 11:01 ./usr/lib/pirs/baseCalling_Matrix_calculator.pl
-rwxr-xr-x root/root 5672 2020-12-05 11:01 ./usr/lib/pirs/baseCalling_Matrix_merger.old.pl
-rwxr-xr-x root/root 6280 2020-12-05 11:01 ./usr/lib/pirs/baseCalling_Matrix_merger.pl
-rwxr-xr-x root/root 3231 2020-12-05 11:01 ./usr/lib/pirs/gc_coverage_bias_plot.pl
-rwxr-xr-x root/root 358 2020-12-05 11:01 ./usr/lib/pirs/gethist.pl
-rwxr-xr-x root/root 4055 2020-12-05 11:01 ./usr/lib/pirs/ifollowQ.pl
-rwxr-xr-x root/root 3530 2020-12-05 11:01 ./usr/lib/pirs/ifollowQmerge.pl
-rwxr-xr-x root/root 613 2020-12-05 11:01 ./usr/lib/pirs/ifollowQplot.pl
-rwxr-xr-x root/root 1820 2020-12-05 11:01 ./usr/lib/pirs/ifqQ.pl
-rwxr-xr-x root/root 7228 2020-12-05 11:01 ./usr/lib/pirs/indelstat_sam_bam.pl
-rwxr-xr-x root/root 2679 2020-12-05 11:01 ./usr/lib/pirs/itilestator.pl
-rwxr-xr-x root/root 1460 2016-08-14 05:10 ./usr/lib/pirs/loess.pl
-rwxr-xr-x root/root 3080 2020-12-05 11:01 ./usr/lib/pirs/pifollowQmerge.pl
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/share/
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/share/doc/
drwxr-xr-x root/root 0 2020-12-05 11:01 ./usr/share/doc/pirs/
-rw-r--r-- root/root 7184 2016-08-14 05:10 ./usr/share/doc/pirs/README.gz
-rw-r--r-- root/root 1184 2020-12-05 11:01 ./usr/share/doc/pirs/changelog.Debian.gz
-rw-r--r-- root/root 3446 2016-08-14 05:10 ./usr/share/doc/pirs/changelog.gz
-rw-r--r-- root/root 2931 2020-12-05 11:01 ./usr/share/doc/pirs/copyright
-rw-r--r-- root/root 1288 2016-08-14 05:10 ./usr/share/doc/pirs/strator_readme.txt
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build-Space: 44496
Build-Time: 194
Distribution: bullseye-staging
Host Architecture: armhf
Install-Time: 361
Job: pirs_2.0.2+dfsg-9
Machine Architecture: armhf
Package: pirs
Package-Time: 606
Source-Version: 2.0.2+dfsg-9
Space: 44496
Status: successful
Version: 2.0.2+dfsg-9
--------------------------------------------------------------------------------
Finished at 2020-12-11T06:35:43Z
Build needed 00:10:06, 44496k disc space